BiocGenerics v0.18.0

S4 generic functions for Bioconductor

S4 generic functions needed by many Bioconductor packages.

Functions in BiocGenerics

Name Description
annotation Accessing annotation information
append Append elements to a vector-like object
boxplot Box plots
IQR The Interquartile Range
evalq Evaluate an (unevaluated) expression
dge Accessors and generic functions used in the context of count datasets
tapply Apply a function over a ragged array
score Score accessor
S3-classes-as-S4-classes S3 classes as S4 classes
plotPCA PCA-plot: Principal Component Analysis plot
rep Replicate elements of a vector-like object
subset Subsetting vector-like, matrix-like and data-frame-like objects
nrow The number of rows/columns of an array-like object
cbind Combine objects by rows or columns
organism_species Organism and species accessors
paste Concatenate strings
unique Extract unique elements
duplicated Determine duplicate elements
plotMA MA-plot: plot differences versus averages for high-throughput data Execute a function call
get Return the value of a named object
image Display a color image
normalize Normalize an object
combine Combining or merging different Bioconductor data structures
testPackage Run RUnit package unit tests
start Start, end, width generic getters and setters
sort Sorting a vector-like object
table Cross tabulation and table creation
as.vector Coerce an object into a vector
match Value matching
BiocGenerics-package S4 generic functions for Bioconductor
density Kernel density estimation
clusterApply Apply operations using clusters
grep Pattern Matching and Replacement
order Ordering permutation
strand Accessing strand information
weights Extract model weights
sets Set operations
eval Evaluate an (unevaluated) expression
Extremes Maxima and minima
xtabs Cross tabulation
lengths Lengths of the list elements of a list-like object
relist Re-listing an unlist()ed object
rank Ranks the values in a vector-like object
updateObject Update an object to its current class definition
residuals Extract model residuals Coerce an object into a data frame
lapply Apply a function over a list-like or vector-like object
row+colnames Row and column names
funprog Common higher-order functions in functional programming languages
unsplit Unsplit a list-like object
mad Median Absolute Deviation
is.unsorted Test if a vector-like object is not sorted
mapply Apply a function to multiple list-like or vector-like arguments
unlist Flatten list-like objects
fileName Accessing the file name of an object
dbconn Accessing SQLite DB information
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biocViews Infrastructure
License Artistic-2.0
Collate S3-classes-as-S4-classes.R normarg-utils.R replaceSlots.R append.R as.list.R as.vector.R cbind.R duplicated.R eval.R Extremes.R funprog.R get.R grep.R is.unsorted.R lapply.R lengths.R mapply.R match.R nrow.R order.R paste.R rank.R rep.R row_colnames.R sets.R sort.R start.R subset.R table.R tapply.R unique.R unlist.R unsplit.R relist.R boxplot.R image.R density.R IQR.R mad.R residuals.R weights.R xtabs.R clusterApply.R annotation.R combine.R dbconn.R dge.R fileName.R normalize.R organism_species.R plotMA.R plotPCA.R score.R strand.R updateObject.R testPackage.R zzz.R

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